CITE-seq analysis tutorials

crazyhottommy

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Join Date: Apr 2012

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CITE-seq analysis tutorials

12-24-2023, 01:21 PM

Hi Bioinformatics lovers,

I put together 4 blog posts on CITE-seq analysis:

Part 1 How to use Salmon/Alevin to preprocess CITE-seq data https://divingintogeneticsandgenomic...cite-seq-data/

Part 2 CITE-seq downstream analysis: From Alevin output to Seurat visualization

Part 2 CITE-seq downstream analysis: From Alevin output to Seurat visualization | Chatomics

https://divingintogeneticsandgenomics.com/post/cite-seq-downstream-analysis-from-alevin-output-to-seurat-visualization/

In my last post, I showed you how to get the protein and RNA counts from a CITE-seq experiment using Simpleaf. Now that we have the raw count matrices, we are …

Part 3 Centered log ratio (CLR) normalization for CITE-seq protein count data https://divingintogeneticsandgenomic...in-count-data/

Part 4 CITE-seq normalization using empty droplets with the dsb package https://divingintogeneticsandgenomic...e-dsb-package/

Happy Learning!
Tommy
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